Literature DB >> 28475896

The RNA Exosome Syncs IAV-RNAPII Transcription to Promote Viral Ribogenesis and Infectivity.

Alexander Rialdi1, Judd Hultquist2, David Jimenez-Morales2, Zuleyma Peralta3, Laura Campisi1, Romain Fenouil3, Natasha Moshkina1, Zhen Zhen Wang1, Brice Laffleur4, Robyn M Kaake2, Michael J McGregor2, Kelsey Haas2, Evangelos Pefanis5, Randy A Albrecht1, Lars Pache6, Sumit Chanda6, Joanna Jen7, Jordi Ochando8, Minji Byun8, Uttiya Basu4, Adolfo García-Sastre9, Nevan Krogan2, Harm van Bakel3, Ivan Marazzi10.   

Abstract

The nuclear RNA exosome is an essential multi-subunit complex that controls RNA homeostasis. Congenital mutations in RNA exosome genes are associated with neurodegenerative diseases. Little is known about the role of the RNA exosome in the cellular response to pathogens. Here, using NGS and human and mouse genetics, we show that influenza A virus (IAV) ribogenesis and growth are suppressed by impaired RNA exosome activity. Mechanistically, the nuclear RNA exosome coordinates the initial steps of viral transcription with RNAPII at host promoters. The viral polymerase complex co-opts the nuclear RNA exosome complex and cellular RNAs en route to 3' end degradation. Exosome deficiency uncouples chromatin targeting of the viral polymerase complex and the formation of cellular:viral RNA hybrids, which are essential RNA intermediates that license transcription of antisense genomic viral RNAs. Our results suggest that evolutionary arms races have shaped the cellular RNA quality control machinery.
Copyright © 2017 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Influenza virus polymerase; RNA chimeras; RNA exosome; RNA hybrids; RNA surveillance; RNAPII elongation; epigenetics; host-pathogen interactions; neurodegeneration; non-coding RNA

Mesh:

Substances:

Year:  2017        PMID: 28475896      PMCID: PMC6217988          DOI: 10.1016/j.cell.2017.04.021

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   41.582


  70 in total

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Journal:  Genome Res       Date:  2003-11       Impact factor: 9.043

2.  Exome sequencing in a family with intellectual disability, early onset spasticity, and cerebellar atrophy detects a novel mutation in EXOSC3.

Authors:  Ginevra Zanni; Chiara Scotton; Chiara Passarelli; Mingyan Fang; Sabina Barresi; Bruno Dallapiccola; Bin Wu; Francesca Gualandi; Alessandra Ferlini; E Bertini; Wang Wei
Journal:  Neurogenetics       Date:  2013-08-24       Impact factor: 2.660

3.  SAINTq: Scoring protein-protein interactions in affinity purification - mass spectrometry experiments with fragment or peptide intensity data.

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Journal:  Proteomics       Date:  2016-05-27       Impact factor: 3.984

4.  Structural insight into cap-snatching and RNA synthesis by influenza polymerase.

Authors:  Stefan Reich; Delphine Guilligay; Alexander Pflug; Hélène Malet; Imre Berger; Thibaut Crépin; Darren Hart; Thomas Lunardi; Max Nanao; Rob W H Ruigrok; Stephen Cusack
Journal:  Nature       Date:  2014-11-19       Impact factor: 49.962

5.  C-terminal truncations in human 3'-5' DNA exonuclease TREX1 cause autosomal dominant retinal vasculopathy with cerebral leukodystrophy.

Authors:  Anna Richards; Arn M J M van den Maagdenberg; Joanna C Jen; David Kavanagh; Paula Bertram; Dirk Spitzer; M Kathryn Liszewski; Maria-Louise Barilla-Labarca; Gisela M Terwindt; Yumi Kasai; Mike McLellan; Mark Gilbert Grand; Kaate R J Vanmolkot; Boukje de Vries; Jijun Wan; Michael J Kane; Hafsa Mamsa; Ruth Schäfer; Anine H Stam; Joost Haan; Paulus T V M de Jong; Caroline W Storimans; Mary J van Schooneveld; Jendo A Oosterhuis; Andreas Gschwendter; Martin Dichgans; Katya E Kotschet; Suzanne Hodgkinson; Todd A Hardy; Martin B Delatycki; Rula A Hajj-Ali; Parul H Kothari; Stanley F Nelson; Rune R Frants; Robert W Baloh; Michel D Ferrari; John P Atkinson
Journal:  Nat Genet       Date:  2007-07-29       Impact factor: 38.330

6.  In vivo bioluminescent imaging of influenza a virus infection and characterization of novel cross-protective monoclonal antibodies.

Authors:  Nicholas S Heaton; Victor H Leyva-Grado; Gene S Tan; Dirk Eggink; Rong Hai; Peter Palese
Journal:  J Virol       Date:  2013-05-22       Impact factor: 5.103

7.  The cap-snatching endonuclease of influenza virus polymerase resides in the PA subunit.

Authors:  Alexandre Dias; Denis Bouvier; Thibaut Crépin; Andrew A McCarthy; Darren J Hart; Florence Baudin; Stephen Cusack; Rob W H Ruigrok
Journal:  Nature       Date:  2009-02-04       Impact factor: 49.962

8.  EXOSC3 mutations in isolated cerebellar hypoplasia and spinal anterior horn involvement.

Authors:  Roberta Biancheri; Denise Cassandrini; Francesca Pinto; Rosanna Trovato; Maja Di Rocco; Marisol Mirabelli-Badenier; Marina Pedemonte; Chiara Panicucci; Holger Trucks; Thomas Sander; Federico Zara; Andrea Rossi; Pasquale Striano; Carlo Minetti; Filippo Maria Santorelli
Journal:  J Neurol       Date:  2013-04-07       Impact factor: 4.849

9.  TopHat: discovering splice junctions with RNA-Seq.

Authors:  Cole Trapnell; Lior Pachter; Steven L Salzberg
Journal:  Bioinformatics       Date:  2009-03-16       Impact factor: 6.937

10.  EXOSC8 mutations alter mRNA metabolism and cause hypomyelination with spinal muscular atrophy and cerebellar hypoplasia.

Authors:  Veronika Boczonadi; Juliane S Müller; Angela Pyle; Jennifer Munkley; Talya Dor; Jade Quartararo; Ileana Ferrero; Veronika Karcagi; Michele Giunta; Tuomo Polvikoski; Daniel Birchall; Agota Princzinger; Yuval Cinnamon; Susanne Lützkendorf; Henriett Piko; Mojgan Reza; Laura Florez; Mauro Santibanez-Koref; Helen Griffin; Markus Schuelke; Orly Elpeleg; Luba Kalaydjieva; Hanns Lochmüller; David J Elliott; Patrick F Chinnery; Shimon Edvardson; Rita Horvath
Journal:  Nat Commun       Date:  2014-07-03       Impact factor: 14.919

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  25 in total

1.  Profiling of rotavirus 3'UTR-binding proteins reveals the ATP synthase subunit ATP5B as a host factor that supports late-stage virus replication.

Authors:  Lili Ren; Siyuan Ding; Yanhua Song; Bin Li; Muthukumar Ramanathan; Julia Co; Manuel R Amieva; Paul A Khavari; Harry B Greenberg
Journal:  J Biol Chem       Date:  2019-02-15       Impact factor: 5.157

Review 2.  Chromatin dependencies in cancer and inflammation.

Authors:  Ivan Marazzi; Benjamin D Greenbaum; Diana H P Low; Ernesto Guccione
Journal:  Nat Rev Mol Cell Biol       Date:  2017-11-29       Impact factor: 94.444

Review 3.  Controlling nuclear RNA levels.

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Journal:  Nat Rev Genet       Date:  2018-08       Impact factor: 53.242

4.  Phosphoproteome Analysis of Cells Infected with Adapted and Nonadapted Influenza A Virus Reveals Novel Pro- and Antiviral Signaling Networks.

Authors:  Axel Weber; Sharmistha Dam; Vera V Saul; Irina Kuznetsova; Christin Müller; Karin Fritz-Wolf; Katja Becker; Uwe Linne; Hongbo Gu; Matthew P Stokes; Stephan Pleschka; Michael Kracht; M Lienhard Schmitz
Journal:  J Virol       Date:  2019-06-14       Impact factor: 5.103

Review 5.  An overview of influenza A virus genes, protein functions, and replication cycle highlighting important updates.

Authors:  Ravendra P Chauhan; Michelle L Gordon
Journal:  Virus Genes       Date:  2022-04-26       Impact factor: 2.332

6.  Low expression of EXOSC2 protects against clinical COVID-19 and impedes SARS-CoV-2 replication.

Authors:  Tobias Moll; Valerie Odon; Calum Harvey; Mark O Collins; Andrew Peden; John Franklin; Emily Graves; Jack Ng Marshall; Cleide Dos Santos Souza; Sai Zhang; Lydia Castelli; Guillaume Hautbergue; Mimoun Azzouz; David Gordon; Nevan Krogan; Laura Ferraiuolo; Michael P Snyder; Pamela J Shaw; Jan Rehwinkel; Johnathan Cooper-Knock
Journal:  Life Sci Alliance       Date:  2022-10-14

Review 7.  Unconventional viral gene expression mechanisms as therapeutic targets.

Authors:  Jessica Sook Yuin Ho; Zeyu Zhu; Ivan Marazzi
Journal:  Nature       Date:  2021-05-19       Impact factor: 49.962

Review 8.  Flipping the script: viral capitalization of RNA modifications.

Authors:  Matthew T Sacco; Stacy M Horner
Journal:  Brief Funct Genomics       Date:  2021-03-27       Impact factor: 4.241

9.  Intergenic RNA mainly derives from nascent transcripts of known genes.

Authors:  Jernej Ule; Nicholas M Luscombe; Federico Agostini; Julian Zagalak; Jan Attig
Journal:  Genome Biol       Date:  2021-05-05       Impact factor: 13.583

10.  The sockeye salmon genome, transcriptome, and analyses identifying population defining regions of the genome.

Authors:  Kris A Christensen; Eric B Rondeau; David R Minkley; Dionne Sakhrani; Carlo A Biagi; Anne-Marie Flores; Ruth E Withler; Scott A Pavey; Terry D Beacham; Theresa Godin; Eric B Taylor; Michael A Russello; Robert H Devlin; Ben F Koop
Journal:  PLoS One       Date:  2020-10-29       Impact factor: 3.240

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